Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4925 and PP_4926 are separated by 240 nucleotidesPP_4926 and PP_4927 overlap by 4 nucleotidesPP_4927 and PP_4928 are separated by 187 nucleotidesPP_4928 and PP_4929 are separated by 11 nucleotides PP_4925: PP_4925 - conserved protein of unknown function, at 5,603,478 to 5,604,287 _4925 PP_4926: PP_4926 - HlyD family secretion protein, at 5,604,528 to 5,605,946 _4926 PP_4927: PP_4927 - Cyclolysin secretion/processing ATP-binding protein CyaB, at 5,605,943 to 5,608,138 _4927 PP_4928: PP_4928 - 3-deoxy-D-manno-octulosonic acid transferase, at 5,608,326 to 5,609,597 _4928 PP_4929: PP_4929 - Transcriptional regulator, LysR family, at 5,609,609 to 5,610,514 _4929
Group Condition PP_4925 PP_4926 PP_4927 PP_4928 PP_4929
temperature shift Temperature shift 30_to_21; with MOPS -2.1 -0.4 +0.0 N.D. +0.0
nitrogen source nitrogen source nitrite 1mM -2.1 +0.3 -0.2 N.D. -0.4
pH Growth at pH7 and (C) Trisodium citrate -2.6 -0.3 +0.2 N.D. +0.2
nitrogen source 2,6-diaminopimelic (N) -2.5 -0.1 +0.0 N.D. +0.1
phage P. putida Sci small MOI 0.1 -0.0 -0.6 -0.0 N.D. -1.4
carbon source D-Glucose (C) -1.1 -0.1 +0.2 N.D. -1.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.9 -0.1 +0.3 N.D. -1.0
nitrogen source nitrate (N) -1.3 +0.2 +0.0 N.D. -0.5
pH Growth at pH6 and (C) Trisodium citrate -0.7 -0.2 +0.2 N.D. -0.9
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -1.6 +0.0 +0.1 N.D. -0.0
phage P. putida Missley MOI 0.1 -0.1 +0.2 +0.2 N.D. -1.5
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI +0.3 -1.1 -0.0 N.D. -0.4
stress R2A with Fusaric 480 ug/mL -1.2 -0.2 -0.0 N.D. +0.3
nitrogen source NAG (N); with MOPS -1.0 +0.3 +0.2 N.D. -0.6
pH Growth at pH7 and (C) Trisodium citrate -0.6 -0.8 +0.1 N.D. +0.3
stress MOPS minimal media_Glucose20mM with Carbenicillin 100 .g/mL -0.6 +0.3 +0.2 N.D. -0.7
carbon source Valerolactone (C) +0.2 -0.4 +0.5 N.D. -0.6
agar plate interaction control Parafilmed volatile agar plate with no fungus +0.9 +0.1 -0.2 N.D. -0.6
carbon source carbon source 3-O-methyl-glucose 10 mM +1.1 +0.2 -0.0 N.D. -1.1
carbon source 5-Aminovaleric 10 mM (C) -0.8 +0.5 +0.1 N.D. +0.5
phage P. putida South MOI 10 +0.7 +0.4 +0.2 N.D. -0.5
pH pH 7 +1.5 -0.4 +0.0 N.D. -0.4
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO with 20% v/v oleyl alcohol overlay +1.4 -0.1 -0.3 N.D. -0.2
stress Growth with Chloride 500 mM; with MOPS +0.7 +0.3 +0.4 N.D. -0.4
pH pH 5 +1.0 +0.5 -0.0 N.D. -0.4
carbon source Tween 20 (C) -0.4 +0.6 +0.2 N.D. +0.7
pH pH 4 +1.5 +0.2 -0.0 N.D. +0.2
phage PUT 8 MOI 1 +1.8 +0.2 -0.1 N.D. +0.2
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +1.1 +0.2 +0.1 N.D. +0.9
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +1.8 +0.4 +0.2 N.D. +0.7
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